Showing : methylationEPIC • reset
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Beta values and M values cluster differently
methylationEPIC minfi microarray epigenetics EPIC
5.7 years ago firestar ▴ 20
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Best normalisation method
microarray methylationEPIC epigenetics minfi EPIC
5.7 years ago firestar ▴ 20
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could not find function "champ.load"
ChAMP champ 2.9.10 methylationepic
6.7 years ago david.ch • 0
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differential methylation analysis with RnBeads
rnbeads methylation methylationepic dna methylation
6.8 years ago gabrielrfries • 0
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ChAMP Methylation analysis error code "could not find function champ.load"
champ methylationepic
updated 6.8 years ago by ▴ 290 • written 6.8 years ago by • 0
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Error while using champ.svd() function in subset of data
ChAMP methylationepic epicarray epigenomics
updated 7.2 years ago by ▴ 140 • written 7.2 years ago by ▴ 10
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Error when changing the database for minfi dropLociWithSnps
minfi methylationepic illuminahumanmethylationepicanno.ilmn10b.hg19 SNP
7.4 years ago Ellen O • 0
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Illumina methylationEPIC demo data in IDAT format?
methylation illumina EPIC methylationepic idat
updated 7.5 years ago by ★ 4.1k • written 7.6 years ago by • 0
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minfi "mapToGenome" dimension error
methylation epic microarray minfi methylationepic
7.7 years ago nhejazi • 0
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Shinymethyl 850K Array quality control signal cutoffs
shinymethyl minfi epic microarray methylationepic qualitycontrol
7.8 years ago chelsey.ju • 0
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MINFI missing samples in qcreports and densityplots
minfi illumina methylationEPIC densityplot
7.9 years ago annabelle.congras ▴ 10
11 results • Page 1 of 1
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Comment: Is it possible to parallelise saveHDF5SummarizedExperiment by Stefano Mangiola ▴ 20
saveTileDBSummarizedExperiment would be awesome. I think we need performance for execution time and memory required to save.
Comment: Create Illmina bead summary data by Liu • 0
Hi! Yes, thank you! I completely agree. I am just curious about how these two files are processed with AVG_Gre and detection p-value. I am …
Answer: Epic v2 Annotation CpG_maf source? by James W. MacDonald 67k
Those all come from dbSNP by way of UCSC. [See here][1], particularly lines 114 and onward. Here is no MAF for a CpG. The MAF is for the…
Comment: Deseq2 res Function by James W. MacDonald 67k
In addition to Mike's comment, do note that if you are generating a heatmap based on the set of significant genes, the direction of your co…
Answer: Struggle with the replicates of epic array data by James W. MacDonald 67k
You shouldn't be using beta values for a linear model that assumes a unimodal, untruncated distribution (beta values are strictly on (0-1) …
Votes
Appropriate use of the function treat of the limma package
Comment: Is it recommended to analyze different tissues together when using edgeR
Answer: Deseq2 res Function
Answer: BiocNeighbours Utility for k-Nearest Neighbour Classification
Answer: ANOVA like approach of edgeR
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